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Quantifying lymphocyte receptor diversity

Thierry Mora, Aleksandra M. Walczak
doi: https://doi.org/10.1101/046870
Thierry Mora
1Laboratoire de physique statistique, CNRS, UPMC and École normale supérieure, 24, rue Lhomond, Paris, France and
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Aleksandra M. Walczak
2Laboratoire de physique théorique, CNRS, UPMC and École normale supérieure, 24, rue Lhomond, Paris, France
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Abstract

To recognize pathogens, B and T lymphocytes are endowed with a wide repertoire of receptors generated stochastically by V(D)J recombination. Measuring and estimating the diversity of these receptors is of great importance for understanding adaptive immunity. In this chapter we review recent modeling approaches for analyzing receptor diversity from high-throughput sequencing data. We first clarify the various existing notions of diversity, with its many competing mathematical indices, and the different biological levels at which it can be evaluated. We then describe inference methods for characterizing the statistical diversity of receptors at different stages of their history: generation, selection and somatic evolution. We discuss the intrinsic difficulty of estimating the diversity of receptors realized in a given individual from incomplete samples. Finally, we emphasize the limitations of diversity defined at the level of receptor sequences, and advocate the more relevant notion of functional diversity relative to the set of recognized antigens.

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Posted April 03, 2016.
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Quantifying lymphocyte receptor diversity
Thierry Mora, Aleksandra M. Walczak
bioRxiv 046870; doi: https://doi.org/10.1101/046870
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Quantifying lymphocyte receptor diversity
Thierry Mora, Aleksandra M. Walczak
bioRxiv 046870; doi: https://doi.org/10.1101/046870

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